HsaINT0113498 @ hg19
Intron Retention
Gene
ENSG00000087303 | NID2
Description
nidogen 2 (osteonidogen) [Source:HGNC Symbol;Acc:13389]
Coordinates
chr14:52474528-52477765:-
Coord C1 exon
chr14:52477594-52477765
Coord A exon
chr14:52474686-52477593
Coord C2 exon
chr14:52474528-52474685
Length
2908 bp
Sequences
Splice sites
5' ss Seq
AGGGTCAGC
5' ss Score
3.64
3' ss Seq
TCTTGATTTTTAACTTACAGCAA
3' ss Score
8.03
Exon sequences
Seq C1 exon
GTCTGATAAGCCCTGAAGGACTTGCCATAGACCACATCCGCAGAACAATGTACTGGACGGACAGTGTCCTGGATAAGATAGAGAGCGCCCTGCTGGATGGCTCTGAGCGCAAGGTCCTCTTCTACACAGATCTGGTGAATCCCCGTGCCATCGCTGTGGATCCAATCCGAGG
Seq A exon
GTCAGCTGGGCTTCCCTAATTCTTCTCTTACCTGTAGATCCTGATGTGAAGCCCTTGGGTTTTAAATACAATGTGGGGAAGGTCAGAACAAGAGAGTGAAAGCTCAAATGCATTCATGTAACAAAGATTTACTGAGGATCTAAGAGGTGTCAGGACCTGTTCTAGGAAAAGACAAGGTCTGTTCTTTCATGGCACTTATATTTTATTAGGAGGAAACAAGACTGGTATAAACAATATTAGTCTGTGATGTGATATGTAGAAAATTCAGATAGTGTTGTGAGAACTAGGGCTACTCTGAATCAAATGATCAGGCGAGGCCTCAGCTGACACTTAAACTGGAAGTGAAGTGGGATTCCTCCAGCAGCACATTTAGAAACCAGGGTTGACGCTCACAGTAGGGCTGACCTACATCAAGTGACATTAGCCAAAGCTCAGACACCTCTGGCTTCAGTGTTGCTGTAGCAGAAATCAAGATAAACATTTTCCCTGTCTGTATAATTGCTAAGGTCATCAAATGTGACATACAGGATTTGTTCACTGTCTCAGTACTTGTTACAATCAGGGAGAATTTTTATATCTTGAGAAACTCTTGCCATGTTTAAGTGGAGTTTCTACGAAATGAAATTCCCAGATGCCCTTCAAATCAGTAAAGAAAACCTTCAGCTTTAATTTTCAGGTAAGTGCTTTTTGACTATGAAATACTTAGTGCAGTGCCTCAAAGGTGGTTTCAAACTTTGGGTTCTACACACAGGAAAAGTACCTGTATCCTTCTCTATTCCAGTTGACTTAACAGGAATTAATAGCCCTCTTAAAAACTCTTTGCATAGGCTTGCCTTTCTGACATTTGGACATTTGGAAGGTCCTTTTTTCTTTTTTTTTTCTTTTTTTTGAGACAAGGTCTTGCTTTGTTGCCGAGGCTGGGGTGCAGTGGCACAGTCTCGGCTGACTACAACCTCCATCTCCCGGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACAGGCATGTGCCACCATGCCCAGCTAATTTTTGTATTTTTAGTCGAGACAGGGTTTCGCCATTTTGGTCTCCAACTCCTGACCCTGGGTGATCCACCTGCCTTGGCCTCCCAAAGTGCTGGGATTATAGGTATGAGCCACTGCGCCCGGCCCCTTATTCCTTCTTGGTGCTTGACCTGAAAACTGGGGAGAGCTGCCATCTTGTAGGCAATGAAACTTTGGCCATGTCTCTGGAGTCTGGGGAAAAAGCATACTTTTAAGCTGAAATCCACATCACAGCCATGAGTTTAAATATGAAAGTAGAACTTTCTTATCCAGACAGCAAATATAAATGCTAAAGGACTTGAATTTTTAATAAAAAGAAAACCCACCTTGAACCAGGTTGCAATATAACACATGTAATTACATCTCCTTCAACTGCGTAACAGAATGGTTGTCAAGCCTTCCTGCATATTTCTCATTTGCTTTCTATAGATTTCACCTTTACAACTTTCTTCCTCTGGCAATCCCCAAATAATTTACACCAAATATCTGTGTGAGCTTGTTTCAGACTTATTGTTGTTGATGATATTAAATCATTTTGGGGAGGAGACTGATCAGAAGCGATGAAGCAATGATATGCATGCTGTACCCTCTGGCCACCTCCACCTTAGCGCAAAGTGGAAACTGCTTTCTAGCTTTTGCTCTCAGCTTCTCTCTGCTTCATCTGTTGGGCATAAGGGATGAAATTCGCAACAGGGGAAACCTATGGTTTCTTCCTCTCCTCTCACTGAGGTTCTCTGTAGCCCAACTGATTTATTCAAAGCTTCTATAGCTTTTATAAAATAGTATTTTATAAAAAGTGCTTTCAACATTATTTCTGCTCTAACGATAAACCTGTTTGTTTCCTTATAACCTATTTCCACTTAATAGGACCATATTTCCTCGTTAGTATCTGTTATGAATATATTTCATTTTTAACGTGGCATTTAAAAGGTAAAGTGCTTAACTTAAAATGTTTCCATCCCTGGGTGCCAGGTACCCCTTCAAGTACCAAATTGTATTTTTGGCAGAAGAAAGAACAGTTTCCTTCTCAAATCCCTGGTCCACATCTCTTCAAGTTCCATAGTTTGTATCGAAGCCATTCCTAACAGCTGTATTTGTTTCTATTCTAAAACCCAAGATCCAATTCAAGACTTCAACAAACGGAGGGTTTTGGGGCAGTTGAGTCAAGGGGTATCTTGGAGGCAGGGATTCTGATAGTAACTTAGTAATGACTTCTCCCACATAGTGACAATAATCAGAAAACCTTGTGATACAGGTAAAAGTGGAATATGGCTGTGTATTAGTTACCTACTGCTGTGTAAGAAATTGCCCAAACCCTCAGCAGTGTAAGATAACATTTAGTCTCACAGTTTCTGTGAGTCAGGAATCCAAGTGTGTCTTCACCGAGCTCCCTCAGGCATGGAGTCTCTCACAAGGCTGCAATCAGGTAATGGCCAAACTGCAGTGATCACAAGGCTCAGCTCGGGGAAGACACAGCCCAAGCATGCTCACATGGGCTACAGGCAAGACTAATGTCTCTGGCCAACAGCCCTCAAGGACATCAGTTCCTTGGCACATGTTCCCCTTTACAGGGTAGCTTGCAACATGGCATCCAGCTTCCCTCAAAGGGAGCAAGAGAGAGCCCCTAAGGCAGAAACCAGTTTTTTGAGACCGAATATCGGCAGTGATAGCCTATCACTTCTGCTATACTCTATGCACTAGAAGAAGCAAGACACTACTAATGCAGCCCAAACTCAAGGGGATTGCTTAAGGCTATAATACATGAGGAGATGGAGATCACTGGGGGCTGCTTAGATGCTGCCTACCACAGGCTACATGGCTATTCTTTTACAATCTTGATTTTTAACTTACAG
Seq C2 exon
CAACTTGTACTGGACAGACTGGAATAGAGAAGCTCCTAAAATTGAAACGTCATCTTTAGATGGAGAAAACAGAAGAATTCTGATCAATACAGACATTGGATTGCCCAATGGCTTAACCTTTGACCCTTTCTCTAAACTGCTCTGCTGGGCAGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000087303-NID2:NM_007361:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.019
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(26.2=19.0),PF0005812=Ldl_recept_b=WD(100=70.7),PF0005812=Ldl_recept_b=PU(0.1=0.0)
A:
NA
C2:
PF0005812=Ldl_recept_b=WD(100=79.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)